FEMS microbiology reviews最新文献_第10页

Integrated molecular approaches for fermented food microbiome research. 发酵食品微生物组研究的综合分子方法。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad001

Aaron M Walsh, John Leech, Curtis Huttenhower, Hue Delhomme-Nguyen, Fiona Crispie, Christian Chervaux, Paul D Cotter

{"title":"Integrated molecular approaches for fermented food microbiome research.","authors":"Aaron M Walsh, John Leech, Curtis Huttenhower, Hue Delhomme-Nguyen, Fiona Crispie, Christian Chervaux, Paul D Cotter","doi":"10.1093/femsre/fuad001","DOIUrl":"10.1093/femsre/fuad001","url":null,"abstract":"Molecular technologies, including high-throughput sequencing, have expanded our perception of the microbial world. Unprecedented insights into the composition and function of microbial communities have generated large interest, with numerous landmark studies published in recent years relating the important roles of microbiomes and the environment-especially diet and nutrition-in human, animal, and global health. As such, food microbiomes represent an important cross-over between the environment and host. This is especially true of fermented food microbiomes, which actively introduce microbial metabolites and, to a lesser extent, live microbes into the human gut. Here, we discuss the history of fermented foods, and examine how molecular approaches have advanced research of these fermented foods over the past decade. We highlight how various molecular approaches have helped us to understand the ways in which microbes shape the qualities of these products, and we summarize the impacts of consuming fermented foods on the gut. Finally, we explore how advances in bioinformatics could be leveraged to enhance our understanding of fermented foods. This review highlights how integrated molecular approaches are changing our understanding of the microbial communities associated with food fermentation, the creation of unique food products, and their influences on the human microbiome and health.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 2","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/c1/9d/fuad001.PMC10002906.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9126431","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Meat fermentation at a crossroads: where the age-old interplay of human, animal, and microbial diversity and contemporary markets meet. 肉类发酵在一个十字路口:在那里古老的相互作用的人类，动物和微生物多样性和当代市场相遇。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad016

Frédéric Leroy, Christina Charmpi, Luc De Vuyst

{"title":"Meat fermentation at a crossroads: where the age-old interplay of human, animal, and microbial diversity and contemporary markets meet.","authors":"Frédéric Leroy, Christina Charmpi, Luc De Vuyst","doi":"10.1093/femsre/fuad016","DOIUrl":"https://doi.org/10.1093/femsre/fuad016","url":null,"abstract":"Despite being part of the now often unfavourably perceived category of processed meats, fermented meats remain of substantial nutritional, economic, and cultural importance in today's foodscapes. This translates into a vast assortment of different products. Fermentation is driven by microorganisms (e.g. in fermented sausages), although the terminology is sometimes used to also designate products in which microbial contributions are less dominant and that depend primarily on the activity of endogenous meat enzymes (e.g. in raw hams). A summary is given of the main microbial groups that characterize various types of meat and, in particular, their fermented derivatives. Moreover, it is argued that producers of fermented meat products struggle to adapt to a contemporary dietary context of change. On the one hand, they wish to reassure consumers by reaffirming the position of fermented meat products as traditional strongholds. On the other hand, producers are trying to alleviate some of the perceived concerns through technological innovation, for instance related to the impact of processing on food safety and health. This review raises the point that these sometimes contradictory trends can affect the choice of meat type, ingredients, and processing parameters, and how these choices, in turn, can affect microbial diversity.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 2","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9422188","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Four billion years of microbial terpenome evolution. 微生物萜烯素进化了40亿年。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad008

Yosuke Hoshino, Laura Villanueva

{"title":"Four billion years of microbial terpenome evolution.","authors":"Yosuke Hoshino, Laura Villanueva","doi":"10.1093/femsre/fuad008","DOIUrl":"https://doi.org/10.1093/femsre/fuad008","url":null,"abstract":"Terpenoids, also known as isoprenoids, are the largest and most diverse class of organic compounds in nature and are involved in many membrane-associated cellular processes, including membrane organization, electron transport chain, cell signaling, and phototrophy. Terpenoids are ancient compounds with their origin presumably before the last universal common ancestor. However, Bacteria and Archaea are known to possess two distinct terpenoid repertoires and utilize terpenoids differently. Most notably, archaea constitute their cellular membrane solely made of terpenoid-based phospholipids, contrary to the bacterial membrane that consists of fatty acid-based phospholipids. Thus, the composition of ancestral membranes at the beginning of cellular life and the diversification of terpenoids in early life remain enigmatic. This review addresses these key issues through comprehensive phylogenomic analyses of extant terpenoid biosynthesis enzymes in Bacteria and Archaea. We aim to infer the basal components of terpenoid biosynthesis machinery that have an ancient origin before the divergence of the two domains and shed light on the deep evolutionary connection between terpenoid biochemistry and early life.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 2","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9770688","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Correction to: The cohesin complex of yeasts: sister chromatid cohesion and beyond. 修正:酵母的内聚复合体:姐妹染色单体内聚及其他。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad006

引用次数: 0

The coral microbiome: towards an understanding of the molecular mechanisms of coral-microbiota interactions. 珊瑚微生物组：了解珊瑚-微生物群相互作用的分子机制。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad005

Amin R Mohamed, Michael A Ochsenkühn, Ahmed Kazlak, Ahmed Moustafa, Shady A Amin

{"title":"The coral microbiome: towards an understanding of the molecular mechanisms of coral-microbiota interactions.","authors":"Amin R Mohamed, Michael A Ochsenkühn, Ahmed Kazlak, Ahmed Moustafa, Shady A Amin","doi":"10.1093/femsre/fuad005","DOIUrl":"10.1093/femsre/fuad005","url":null,"abstract":"Corals live in a complex, multipartite symbiosis with diverse microbes across kingdoms, some of which are implicated in vital functions, such as those related to resilience against climate change. However, knowledge gaps and technical challenges limit our understanding of the nature and functional significance of complex symbiotic relationships within corals. Here, we provide an overview of the complexity of the coral microbiome focusing on taxonomic diversity and functions of well-studied and cryptic microbes. Mining the coral literature indicate that while corals collectively harbour a third of all marine bacterial phyla, known bacterial symbionts and antagonists of corals represent a minute fraction of this diversity and that these taxa cluster into select genera, suggesting selective evolutionary mechanisms enabled these bacteria to gain a niche within the holobiont. Recent advances in coral microbiome research aimed at leveraging microbiome manipulation to increase coral's fitness to help mitigate heat stress-related mortality are discussed. Then, insights into the potential mechanisms through which microbiota can communicate with and modify host responses are examined by describing known recognition patterns, potential microbially derived coral epigenome effector proteins and coral gene regulation. Finally, the power of omics tools used to study corals are highlighted with emphasis on an integrated host-microbiota multiomics framework to understand the underlying mechanisms during symbiosis and climate change-driven dysbiosis.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 2","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/f7/45/fuad005.PMC10045912.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9258631","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 4

Manipulation of plant metabolism by pathogen effectors: more than just food. 病原体效应物对植物代谢的操纵:不仅仅是食物。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad007

Jun Cai, Yuxin Jiang, Erin S Ritchie, Alberto P Macho, Feng Yu, Dousheng Wu

引用次数: 3

The molecular basis and downstream immune consequences of mycobacteria-host cell interactions. 分枝杆菌-宿主细胞相互作用的分子基础和下游免疫后果。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad009

Wassim Daher, Virginia Pichler, Jona Karam, Olivier Neyrolles, Laurent Kremer

{"title":"The molecular basis and downstream immune consequences of mycobacteria-host cell interactions.","authors":"Wassim Daher, Virginia Pichler, Jona Karam, Olivier Neyrolles, Laurent Kremer","doi":"10.1093/femsre/fuad009","DOIUrl":"https://doi.org/10.1093/femsre/fuad009","url":null,"abstract":"Pathogenic mycobacteria gain entry to their hosts by inhalation or ingestion where they adhere to different cell types and are subsequently internalized by professional phagocytic cells, such as macrophages or dendritic cells. Multiple pathogen-associated molecular patterns present on the mycobacterial surface are recognized by and interact with a diverse panel of phagocytic pattern recognition receptors, representing the first step of the infection process. This review summarizes the current knowledge on the numerous host cell receptors and their associated mycobacterial ligands or adhesins. It further discusses the downstream molecular and cellular events resulting from the engagement of the various receptor-mediated pathways, leading to either intracellular survival of mycobacteria or to activation of host immune defenses. The content presented herein on adhesins and host receptors may serve as a resource for those developing novel therapeutic approaches, e.g. in the design of antiadhesin molecules to prevent bacterial attachment and infection. The collection of mycobacterial surface molecules highlighted in this review may also provide potential new therapeutic targets, diagnostic markers, or vaccine candidates to combat these notoriously challenging and persistent pathogens.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 2","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9628093","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Bacterial virulence regulation through soluble peptidoglycan fragments sensing and response: knowledge gaps and therapeutic potential. 通过可溶性肽聚糖片段感知和反应的细菌毒力调节:知识差距和治疗潜力。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-03-10 DOI: 10.1093/femsre/fuad010

María Escobar-Salom, Isabel María Barceló, Elena Jordana-Lluch, Gabriel Torrens, Antonio Oliver, Carlos Juan

{"title":"Bacterial virulence regulation through soluble peptidoglycan fragments sensing and response: knowledge gaps and therapeutic potential.","authors":"María Escobar-Salom, Isabel María Barceló, Elena Jordana-Lluch, Gabriel Torrens, Antonio Oliver, Carlos Juan","doi":"10.1093/femsre/fuad010","DOIUrl":"https://doi.org/10.1093/femsre/fuad010","url":null,"abstract":"Given the growing clinical-epidemiological threat posed by the phenomenon of antibiotic resistance, new therapeutic options are urgently needed, especially against top nosocomial pathogens such as those within the ESKAPE group. In this scenario, research is pushed to explore therapeutic alternatives and, among these, those oriented toward reducing bacterial pathogenic power could pose encouraging options. However, the first step in developing these antivirulence weapons is to find weak points in the bacterial biology to be attacked with the goal of dampening pathogenesis. In this regard, during the last decades some studies have directly/indirectly suggested that certain soluble peptidoglycan-derived fragments display virulence-regulatory capacities, likely through similar mechanisms to those followed to regulate the production of several β-lactamases: binding to specific transcriptional regulators and/or sensing/activation of two-component systems. These data suggest the existence of intra- and also intercellular peptidoglycan-derived signaling capable of impacting bacterial behavior, and hence likely exploitable from the therapeutic perspective. Using the well-known phenomenon of peptidoglycan metabolism-linked β-lactamase regulation as a starting point, we gather and integrate the studies connecting soluble peptidoglycan sensing with fitness/virulence regulation in Gram-negatives, dissecting the gaps in current knowledge that need filling to enable potential therapeutic strategy development, a topic which is also finally discussed.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 2","pages":""},"PeriodicalIF":11.3,"publicationDate":"2023-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/09/4d/fuad010.PMC10039701.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10660914","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Illuminating the oral microbiome and its host interactions: tools and approaches for molecular ecological studies. 阐明口腔微生物群及其与宿主的相互作用：分子生态学研究的工具和方法。

IF 11.3 2区生物学

FEMS microbiology reviews Pub Date : 2023-01-16 DOI: 10.1093/femsre/fuac052

Jens Kreth, Justin Merritt

引用次数: 3

New antiretroviral inhibitors and HIV-1 drug resistance: more focus on 90% HIV-1 isolates? 新的抗逆转录病毒抑制剂和HIV-1耐药性：更多关注90%的HIV-1分离株？

IF 10.1 2区生物学

FEMS microbiology reviews Pub Date : 2023-01-16 DOI: 10.1093/femsre/fuac040

Emmanuel Ndashimye, Paul S Reyes, Eric J Arts

{"title":"New antiretroviral inhibitors and HIV-1 drug resistance: more focus on 90% HIV-1 isolates?","authors":"Emmanuel Ndashimye, Paul S Reyes, Eric J Arts","doi":"10.1093/femsre/fuac040","DOIUrl":"10.1093/femsre/fuac040","url":null,"abstract":"Combined HIV antiretroviral therapy (cART) has been effective except if drug resistance emerges. As cART has been rolled out in low-income countries, drug resistance has emerged at higher rates than observed in high income countries due to factors including initial use of these less tolerated cART regimens, intermittent disruptions in drug supply, and insufficient treatment monitoring. These socioeconomic factors impacting drug resistance are compounded by viral mechanistic differences by divergent HIV-1 non-B subtypes compared to HIV-1 subtype B that largely infects the high-income countries (just 10% of 37 million infected). This review compares the inhibition and resistance of diverse HIV-1 subtypes and strains to the various approved drugs as well as novel inhibitors in clinical trials. Initial sequence variations and differences in replicative fitness between HIV-1 subtypes pushes strains through different fitness landscapes to escape from drug selective pressure. The discussions here provide insight to patient care givers and policy makers on how best to use currently approved ART options and reduce the emergence of drug resistance in ∼33 million individuals infected with HIV-1 subtype A, C, D, G, and recombinants forms. Unfortunately, over 98% of the literature on cART resistance relates to HIV-1 subtype B.","PeriodicalId":12201,"journal":{"name":"FEMS microbiology reviews","volume":"47 1","pages":""},"PeriodicalIF":10.1,"publicationDate":"2023-01-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9841967/pdf/fuac040.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10022204","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0